ruanjue/bsalign

Banded Striped DNA Sequence Alignment

bsalign's Issues

how to compile in macOS x

I download the repo and run make in the directory, and an awful lot of error generated, any tips to successfully compile it in macOS ?

overlap mode and extend mode?

Dear BSAlign team,

I tried both mode, overlap mode is more like a semi-global mode that ignore gaps at both ends right, so only the overlap region that matters. However, for the extend mode, only gaps at the beginning of sequence 1 are extended while gaps at the end of it were not extended. I just trimmed the first sequence for 50 bp at both ends of it to do the testing. Any reasons for that?

Thanks,

Jianshu

OpenMP parallel?

Hello Team,

It should be easy to just use openMP to parallel among the pairs to using multiple threads right since the library itself runs each pair sequentially. I see the thread.h but it is not used?

Thanks,

Jianshu